Computational Biophotonics for Endoscopic Cancer Diagnosis and Therapy

Project Information

COMBIOSCOPY

Grant agreement ID: 637960

DOI 10.3030/637960

Project closed

EC signature date 22 June 2015

Start date 1 July 2015

End date 31 December 2020

Funded under

• EXCELLENT SCIENCE - European Research Council (ERC)

Total cost € 1 499 699,00

EU contribution € 1 499 699,00

Coordinated by

DEUTSCHES KREBSFORSCHUNGSZENTRUM HEIDELBERG
Germany

Publications

Conference proceedings (7)

Analyzing Inverse Problems with Invertible Neural Networks

Author(s): Lynton Ardizzone, Jakob Kruse, Sebastian Wirkert, Daniel Rahner, Eric W. Pellegrini, Ralf S. Klessen, Lena Maier-Hein, Carsten Rother, Ullrich Köthe
Published in: International Conference on Learning Representations, 2019
Publisher: ICLR

Uncertainty handling in intra-operative multispectral imaging with invertible neural networks

Author(s): Tim J. Adler, Lynton Ardizzone, Leonardo Ayala, Janek Gröhl, Anant Vemuri, Sebastian J. Wirkert, Beat P. Müller-Stich, Carsten Rother, Ullrich Köthe, Lena Maier-Hein
Published in: International Conference on Medical Imaging with Deep Learning, 2019
Publisher: OpenReview.net

Freehand photoacoustic tomography for 3D angiography using local gradient information

Author(s): Thomas Kirchner, Esther Wild, Klaus H. Maier-Hein, Lena Maier-Hein
Published in: Photons Plus Ultrasound: Imaging and Sensing 2016, 2016, Page(s) 97083G
Publisher: SPIE
DOI: 10.1117/12.2209368

Tissue classification for laparoscopic image understanding based on multispectral texture analysis

Author(s): Yan Zhang, Sebastian J. Wirkert, Justin Iszatt, Hannes Kenngott, Martin Wagner, Benjamin Mayer, Christian Stock, Neil T. Clancy, Daniel S. Elson, Lena Maier-Hein
Published in: Medical Imaging 2016: Image-Guided Procedures, Robotic Interventions, and Modeling, 2016, Page(s) 978619
Publisher: SPIE
DOI: 10.1117/12.2216090

Photoacoustic monitoring of blood oxygenation during neurosurgical interventions

Author(s): Thomas Kirchner, Janek Gröhl, Niklas Holzwarth, Mildred A. Herrera, Adrián Hernández-Aguilera, Edgar Santos, Lena Maier-Hein
Published in: Photons Plus Ultrasound: Imaging and Sensing 2019, 2019, Page(s) 11, ISBN 9781510623996
Publisher: SPIE
DOI: 10.1117/12.2509608

Confidence estimation for quantitative photoacoustic imaging

Author(s): Janek Gröhl, Thomas Kirchner, Lena Maier-Hein
Published in: Photons Plus Ultrasound: Imaging and Sensing 2018, 2018, Page(s) 46, ISBN 9781510614741
Publisher: SPIE
DOI: 10.1117/12.2288362

Reconstruction of initial pressure from limited view photoacoustic images using deep learning

Author(s): Janek Gröhl, Dominik Waibel, Fabian Isensee, Thomas Kirchner, Klaus Maier-Hein, Lena Maier-Hein
Published in: Photons Plus Ultrasound: Imaging and Sensing 2018, 2018, Page(s) 98, ISBN 9781510614741
Publisher: SPIE
DOI: 10.1117/12.2288353

Thesis and dissertations (2)

Real-time blood oxygenation tomography with multispectral photoacoustics

Author(s): Thomas Kirchner
Published in: 2019
Publisher: University Heidelberg
DOI: 10.11588/heidok.00026696

Multispectral image analysis in laparoscopy – A machine learning approach to live perfusion monitoring

Author(s): Sebastian J Wirkert
Published in: 2018
Publisher: KIT Karlsruhe
DOI: 10.5445/ir/1000086188

Peer reviewed articles (15)

Anser EMT: the first open-source electromagnetic tracking platform for image-guided interventions

Author(s): Herman Alexander Jaeger, Alfred Michael Franz, Kilian O’Donoghue, Alexander Seitel, Fabian Trauzettel, Lena Maier-Hein, Pádraig Cantillon-Murphy
Published in: International Journal of Computer Assisted Radiology and Surgery, Issue 12/6, 2017, Page(s) 1059-1067, ISSN 1861-6410
Publisher: Springer Verlag
DOI: 10.1007/s11548-017-1568-7

Light source calibration for multispectral imaging in surgery

Author(s): Leonardo Ayala, Silvia Seidlitz, Anant Vemuri, Sebastian J. Wirkert, Thomas Kirchner, Tim J. Adler, Christina Engels, Dogu Teber, Lena Maier-Hein
Published in: International Journal of Computer Assisted Radiology and Surgery, Issue 15/7, 2020, Page(s) 1117-1125, ISSN 1861-6410
Publisher: Springer Verlag
DOI: 10.1007/s11548-020-02195-y

Learned spectral decoloring enables photoacoustic oximetry

Author(s): Janek Gröhl, Thomas Kirchner, Tim J. Adler, Lina Hacker, Niklas Holzwarth, Adrián Hernández-Aguilera, Mildred A. Herrera, Edgar Santos, Sarah E. Bohndiek, Lena Maier-Hein
Published in: Scientific Reports, Issue 11/1, 2021, ISSN 2045-2322
Publisher: Nature Publishing Group
DOI: 10.1038/s41598-021-83405-8

MITK-OpenIGTLink for combining open-source toolkits in real-time computer-assisted interventions

Author(s): Martin Klemm, Thomas Kirchner, Janek Gröhl, Dominique Cheray, Marco Nolden, Alexander Seitel, Harald Hoppe, Lena Maier-Hein, Alfred M. Franz
Published in: International Journal of Computer Assisted Radiology and Surgery, Issue 12/3, 2017, Page(s) 351-361, ISSN 1861-6410
Publisher: Springer Verlag
DOI: 10.1007/s11548-016-1488-y

Deep learning for biomedical photoacoustic imaging: A review

Author(s): Janek Gröhl, Melanie Schellenberg, Kris Dreher, Lena Maier-Hein
Published in: Photoacoustics, Issue 22, 2021, Page(s) 100241, ISSN 2213-5979
Publisher: Elsevier GmbH
DOI: 10.1016/j.pacs.2021.100241

Why rankings of biomedical image analysis competitions should be interpreted with care

Author(s): Lena Maier-Hein, Matthias Eisenmann, Annika Reinke, Sinan Onogur, Marko Stankovic, Patrick Scholz, Tal Arbel, Hrvoje Bogunovic, Andrew P. Bradley, Aaron Carass, Carolin Feldmann, Alejandro F. Frangi, Peter M. Full, Bram van Ginneken, Allan Hanbury, Katrin Honauer, Michal Kozubek, Bennett A. Landman, Keno März, Oskar Maier, Klaus Maier-Hein, Bjoern H. Menze, Henning Müller, Peter F. Neher, Wiro N
Published in: Nature Communications, Issue 9/1, 2018, ISSN 2041-1723
Publisher: Nature Publishing Group
DOI: 10.1038/s41467-018-07619-7

Context encoding enables machine learning-based quantitative photoacoustics

Author(s): Thomas Kirchner, Janek Gröhl, Lena Maier-Hein
Published in: Journal of Biomedical Optics, Issue 23/05, 2018, Page(s) 1, ISSN 1083-3668
Publisher: S P I E - International Society for Optical Engineering
DOI: 10.1117/1.jbo.23.5.056008

Tissue classification for laparoscopic image understanding based on multispectral texture analysis

Author(s): Yan Zhang, Sebastian J. Wirkert, Justin Iszatt, Hannes Kenngott, Martin Wagner, Benjamin Mayer, Christian Stock, Neil T. Clancy, Daniel S. Elson, Lena Maier-Hein
Published in: Journal of Medical Imaging, Issue 4/1, 2017, Page(s) 015001, ISSN 2329-4302
Publisher: SPIE
DOI: 10.1117/1.jmi.4.1.015001

Robust near real-time estimation of physiological parameters from megapixel multispectral images with inverse Monte Carlo and random forest regression

Author(s): Sebastian J. Wirkert, Hannes Kenngott, Benjamin Mayer, Patrick Mietkowski, Martin Wagner, Peter Sauer, Neil T. Clancy, Daniel S. Elson, Lena Maier-Hein
Published in: International Journal of Computer Assisted Radiology and Surgery, Issue 11/6, 2016, Page(s) 909-917, ISSN 1861-6410
Publisher: Springer Verlag
DOI: 10.1007/s11548-016-1376-5

Confidence Estimation for Machine Learning-Based Quantitative Photoacoustics

Author(s): Janek Gröhl, Thomas Kirchner, Tim Adler, Lena Maier-Hein
Published in: Journal of Imaging, Issue 4/12, 2018, Page(s) 147, ISSN 2313-433X
Publisher: MDPI
DOI: 10.3390/jimaging4120147

Uncertainty-aware performance assessment of optical imaging modalities with invertible neural networks

Author(s): Tim J. Adler, Lynton Ardizzone, Anant Vemuri, Leonardo Ayala, Janek Gröhl, Thomas Kirchner, Sebastian Wirkert, Jakob Kruse, Carsten Rother, Ullrich Köthe, Lena Maier-Hein
Published in: International Journal of Computer Assisted Radiology and Surgery, Issue 14/6, 2019, Page(s) 997-1007, ISSN 1861-6410
Publisher: Springer Verlag
DOI: 10.1007/s11548-019-01939-9

Surgical data science for next-generation interventions

Author(s): Lena Maier-Hein, Swaroop S. Vedula, Stefanie Speidel, Nassir Navab, Ron Kikinis, Adrian Park, Matthias Eisenmann, Hubertus Feussner, Germain Forestier, Stamatia Giannarou, Makoto Hashizume, Darko Katic, Hannes Kenngott, Michael Kranzfelder, Anand Malpani, Keno März, Thomas Neumuth, Nicolas Padoy, Carla Pugh, Nicolai Schoch, Danail Stoyanov, Russell Taylor, Martin Wagner, Gregory D. Hager, Pierre
Published in: Nature Biomedical Engineering, Issue 1/9, 2017, Page(s) 691-696, ISSN 2157-846X
Publisher: Springer
DOI: 10.1038/s41551-017-0132-7

Uncertainty-Aware Organ Classification for Surgical Data Science Applications in Laparoscopy

Author(s): Moccia Sara, Wirkert Sebastian J., Kenngott Hannes, Vemuri Anant S., Apitz Martin, Mayer Benjamin, De Momi Elena, Mattos Leonardo S., Maier-Hein, Lena
Published in: IEEE Transactions on Biomedical Engineering, 2018, ISSN 0018-9294
Publisher: Institute of Electrical and Electronics Engineers
DOI: 10.1109/tbme.2018.2813015

Photoacoustics can image spreading depolarization deep in gyrencephalic brain

Author(s): Thomas Kirchner, Janek Gröhl, Mildred A. Herrera, Tim Adler, Adrián Hernández-Aguilera, Edgar Santos, Lena Maier-Hein
Published in: Scientific Reports, Issue 9/1, 2019, ISSN 2045-2322
Publisher: Nature Publishing Group
DOI: 10.1038/s41598-019-44935-4

Signed Real-Time Delay Multiply and Sum Beamforming for Multispectral Photoacoustic Imaging

Author(s): Thomas Kirchner, Franz Sattler, Janek Gröhl, Lena Maier-Hein
Published in: Journal of Imaging, Issue 4/10, 2018, Page(s) 121, ISSN 2313-433X
Publisher: MDPI
DOI: 10.3390/jimaging4100121